Achilles tendon atlas - muscle cells

Main

Cell Metadata

vSMC

Ontology Term: vascular associated smooth muscle cellCL:0000359
Synonyms Terms that have the same, or nearly the same, meaning as the selected cell type.: smooth muscle cell, smooth myocyte
Category Class of which the cell type is a subclass.: mural cellCL:0008034
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: —
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: NOTCH3, PDGFRB, MYO1B, MYH11, TAGLN, TNC, DELEC1
Canonical Marker Genes: NOTCH3, PDGFRB, MYO1B, MYH11, TAGLN
Rationale: This cell was annotated manually using canonical markers in the field (NOTCH3, PDGFRB, MYO1B, MYH11, TAGLN). We noticed TNC, DELEC1 running differential expression.
Rationale DOI: https://doi.org/10.1113/JP287812 https://doi.org/10.1096/fj.202300601RRR https://doi.org/10.1038/s43587-024-00613-3

Set of Labels Description: Lineage annotations were determined by Louvain clustering at resolution 0.1. Each lineage (fibroblast, muscle, immune, stromal) was then subsetted and reclustered. Final annotation resolution was chosen according to expression of biological markers; smaller clusters were combined were appropriate
Annotation Method: manual

Main

Cell Metadata

Ontology Term: vascular associated smooth muscle cellCL:0000359
Synonyms Terms that have the same, or nearly the same, meaning as the selected cell type.: smooth muscle cell, smooth myocyte
Category Class of which the cell type is a subclass.: mural cellCL:0008034
Ontology Assessment Disagreements with any aspect of the Cell Ontology.: —
Marker Gene Evidence Gene markers used by researcher to assign this cell annotation.: NOTCH3, PDGFRB, MYO1B, MYH11, TAGLN, TNC, DELEC1
Canonical Marker Genes: NOTCH3, PDGFRB, MYO1B, MYH11, TAGLN
Rationale: This cell was annotated manually using canonical markers in the field (NOTCH3, PDGFRB, MYO1B, MYH11, TAGLN). We noticed TNC, DELEC1 running differential expression.
Rationale DOI: https://doi.org/10.1113/JP287812 https://doi.org/10.1096/fj.202300601RRR https://doi.org/10.1038/s43587-024-00613-3

Set of Labels Description: Lineage annotations were determined by Louvain clustering at resolution 0.1. Each lineage (fibroblast, muscle, immune, stromal) was then subsetted and reclustered. Final annotation resolution was chosen according to expression of biological markers; smaller clusters were combined were appropriate
Annotation Method: manual